The city operations department serves a liaison between the LMCCC and city agencies. The director is responsible for coordinating the various municipal services as related to construction projects, ensuring that city agencies are able to provide a high level of service to the Lower Manhattan community during reconstruction. The department also facilitates city agency review of the various construction projects to ensure that projects proceed on schedule.

Located at the Command Center, the director of city operations coordinates with high-level personnel from the offices of key participants in the rebuilding process, including the NYC Department of Transportation, the NYC Department of Design and Construction, the NYC Economic Development Corporation, the NYC Department of Sanitation, the NYC Police Department, the NYC Fire Department, the NYC Department of Buildings, the NYC Department of Environmental Protection, the NYC Department of Information Technology and Telecommunications, the NYC Office of Emergency Management, the NYC Department of Parks and Recreation, and others.

The director oversees the day-to-day management and coordination of the city personnel located in the Command Center, who are engaged in traffic management and enforcement, environmental enforcement, and permit conditions enforcement.

In addition, the director is responsible for developing and facilitating the approval of coordinated logistics plans and facilities for Lower Manhattan, such as central labor mobilization and transport facilities, potential concrete batching plants, and material and equipment staging facilities.